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Expression patterns of GmAP2/EREB-like transcription factors involved in soybean responses to water deficit.

Marcolino-Gomes J, Rodrigues FA, Oliveira MC, Farias JR, Neumaier N, Abdelnoor RV, Marcelino-GuimarĂ£es FC, Nepomuceno AL - PLoS ONE (2013)

Bottom Line: We also analyzed a GmDRIP-like gene that encodes a DREB negative regulator.The GmDRIP-like gene was not induced by water deficit in BR16 during the longest periods of stress, but was significantly induced in Embrapa 48; this suggests a possible genetic/molecular difference between the responses of these cultivars to water deficit stress.Additionally, RNAseq gene expression analysis over a 24-h time course indicates that the expression patterns of several GmDREB-like genes are subject to oscillation over the course of the day, indicating a possible circadian regulation.

View Article: PubMed Central - PubMed

Affiliation: Department of Biology, State University of Londrina, Londrina, Brazil.

ABSTRACT
Soybean farming has faced several losses in productivity due to drought events in the last few decades. However, plants have molecular mechanisms to prevent and protect against water deficit injuries, and transcription factors play an important role in triggering different defense mechanisms. Understanding the expression patterns of transcription factors in response to water deficit and to environmental diurnal changes is very important for unveiling water deficit stress tolerance mechanisms. Here, we analyzed the expression patterns of ten APETALA2/Ethylene Responsive Element Binding-like (AP2/EREB-like) transcription factors in two soybean genotypes (BR16: drought-sensitive; and Embrapa 48: drought-tolerant). According to phylogenetic and domain analyses, these genes can be included in the DREB and ERF subfamilies. We also analyzed a GmDRIP-like gene that encodes a DREB negative regulator. We detected the up-regulation of 9 GmAP2/EREB-like genes and identified transcriptional differences that were dependent on the levels of the stress applied and the tissue type analyzed (the expression of the GmDREB1F-like gene, for example, was four times higher in roots than in leaves). The GmDRIP-like gene was not induced by water deficit in BR16 during the longest periods of stress, but was significantly induced in Embrapa 48; this suggests a possible genetic/molecular difference between the responses of these cultivars to water deficit stress. Additionally, RNAseq gene expression analysis over a 24-h time course indicates that the expression patterns of several GmDREB-like genes are subject to oscillation over the course of the day, indicating a possible circadian regulation.

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Related in: MedlinePlus

Phylogenetic tree. Proteins encoded by the candidate genes and the DREB/ERF protein that was described in the NCBI database were used to construct the tree using the ClustalW algorithm with the MEGA 5 program.The Neighbor-Joining (NJ) method was used with the following parameters: Poisson correction, pairwise deletion, and bootstrap (1000 replicates; random seed). Candidate genes are represented by the GeneModels, and the homologous DREB/ERF sequences from Fabaceae (Glycine max, Medicago truncatula, Cypripedium arietinum, Trifolium repens, Glycine soja, Caragana korshinskii, Pisum sativum, and Galega orientalis) are represented by GI.
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pone-0062294-g002: Phylogenetic tree. Proteins encoded by the candidate genes and the DREB/ERF protein that was described in the NCBI database were used to construct the tree using the ClustalW algorithm with the MEGA 5 program.The Neighbor-Joining (NJ) method was used with the following parameters: Poisson correction, pairwise deletion, and bootstrap (1000 replicates; random seed). Candidate genes are represented by the GeneModels, and the homologous DREB/ERF sequences from Fabaceae (Glycine max, Medicago truncatula, Cypripedium arietinum, Trifolium repens, Glycine soja, Caragana korshinskii, Pisum sativum, and Galega orientalis) are represented by GI.

Mentions: The translated amino-acid sequences for these genes were also globally aligned, and a phylogenetic tree was constructed. This analysis shows the phylogenetic relationships between the soybean genes from the DREB and ERF subfamilies and other plants of the Fabaceae family that are found in the NCBI database (Fig. 2). This analysis identified seven main groups of genes: (I) soybean DREB3 and Caragana korshinskii DREB2; (II) Trifolium repens DREB; (III) soybean DREB5; (IV) ERF subfamily; (V) soybean DREB1 and DREB2; (VI) C. Arietinum, soybean, and M. truncatula DREB; (VII) soybean DREB6, DREB7 and DREB 1F and two M. truncatula DREB.


Expression patterns of GmAP2/EREB-like transcription factors involved in soybean responses to water deficit.

Marcolino-Gomes J, Rodrigues FA, Oliveira MC, Farias JR, Neumaier N, Abdelnoor RV, Marcelino-GuimarĂ£es FC, Nepomuceno AL - PLoS ONE (2013)

Phylogenetic tree. Proteins encoded by the candidate genes and the DREB/ERF protein that was described in the NCBI database were used to construct the tree using the ClustalW algorithm with the MEGA 5 program.The Neighbor-Joining (NJ) method was used with the following parameters: Poisson correction, pairwise deletion, and bootstrap (1000 replicates; random seed). Candidate genes are represented by the GeneModels, and the homologous DREB/ERF sequences from Fabaceae (Glycine max, Medicago truncatula, Cypripedium arietinum, Trifolium repens, Glycine soja, Caragana korshinskii, Pisum sativum, and Galega orientalis) are represented by GI.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC3646874&req=5

pone-0062294-g002: Phylogenetic tree. Proteins encoded by the candidate genes and the DREB/ERF protein that was described in the NCBI database were used to construct the tree using the ClustalW algorithm with the MEGA 5 program.The Neighbor-Joining (NJ) method was used with the following parameters: Poisson correction, pairwise deletion, and bootstrap (1000 replicates; random seed). Candidate genes are represented by the GeneModels, and the homologous DREB/ERF sequences from Fabaceae (Glycine max, Medicago truncatula, Cypripedium arietinum, Trifolium repens, Glycine soja, Caragana korshinskii, Pisum sativum, and Galega orientalis) are represented by GI.
Mentions: The translated amino-acid sequences for these genes were also globally aligned, and a phylogenetic tree was constructed. This analysis shows the phylogenetic relationships between the soybean genes from the DREB and ERF subfamilies and other plants of the Fabaceae family that are found in the NCBI database (Fig. 2). This analysis identified seven main groups of genes: (I) soybean DREB3 and Caragana korshinskii DREB2; (II) Trifolium repens DREB; (III) soybean DREB5; (IV) ERF subfamily; (V) soybean DREB1 and DREB2; (VI) C. Arietinum, soybean, and M. truncatula DREB; (VII) soybean DREB6, DREB7 and DREB 1F and two M. truncatula DREB.

Bottom Line: We also analyzed a GmDRIP-like gene that encodes a DREB negative regulator.The GmDRIP-like gene was not induced by water deficit in BR16 during the longest periods of stress, but was significantly induced in Embrapa 48; this suggests a possible genetic/molecular difference between the responses of these cultivars to water deficit stress.Additionally, RNAseq gene expression analysis over a 24-h time course indicates that the expression patterns of several GmDREB-like genes are subject to oscillation over the course of the day, indicating a possible circadian regulation.

View Article: PubMed Central - PubMed

Affiliation: Department of Biology, State University of Londrina, Londrina, Brazil.

ABSTRACT
Soybean farming has faced several losses in productivity due to drought events in the last few decades. However, plants have molecular mechanisms to prevent and protect against water deficit injuries, and transcription factors play an important role in triggering different defense mechanisms. Understanding the expression patterns of transcription factors in response to water deficit and to environmental diurnal changes is very important for unveiling water deficit stress tolerance mechanisms. Here, we analyzed the expression patterns of ten APETALA2/Ethylene Responsive Element Binding-like (AP2/EREB-like) transcription factors in two soybean genotypes (BR16: drought-sensitive; and Embrapa 48: drought-tolerant). According to phylogenetic and domain analyses, these genes can be included in the DREB and ERF subfamilies. We also analyzed a GmDRIP-like gene that encodes a DREB negative regulator. We detected the up-regulation of 9 GmAP2/EREB-like genes and identified transcriptional differences that were dependent on the levels of the stress applied and the tissue type analyzed (the expression of the GmDREB1F-like gene, for example, was four times higher in roots than in leaves). The GmDRIP-like gene was not induced by water deficit in BR16 during the longest periods of stress, but was significantly induced in Embrapa 48; this suggests a possible genetic/molecular difference between the responses of these cultivars to water deficit stress. Additionally, RNAseq gene expression analysis over a 24-h time course indicates that the expression patterns of several GmDREB-like genes are subject to oscillation over the course of the day, indicating a possible circadian regulation.

Show MeSH
Related in: MedlinePlus